Commits for max

v398_base to v399_preview (2020-05-11 to 2020-05-18) v399

909396cec2a8fcd0a220da40a82f29ecee4d5ec6 Tue May 12 03:38:49 2020 -0700

• removing old covid homepage, as per bob email
  • src/hg/htdocs/covid19/covid.css - lines changed 47, context: html, text, full: html, text
  • src/hg/htdocs/covid19/index.html - lines changed 117, context: html, text, full: html, text

db7c8abb6d7674bb26f579eabb58bc080ce76fdd Tue May 12 07:04:05 2020 -0700

• adding a protease track to uniprot, refs #25192
  • src/hg/hgTrackUi/hgTrackUi.c - lines changed 140, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/mirror.html - lines changed 27, context: html, text, full: html, text
  • src/hg/js/hui.js - lines changed 17, context: html, text, full: html, text
  • src/hg/js/subCfg.js - lines changed 39, context: html, text, full: html, text
  • src/hg/lib/hui.c - lines changed 47, context: html, text, full: html, text
  • src/hg/makeDb/avada/avada.as - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/doc/wuhCor1/kim2020.txt - lines changed 18, context: html, text, full: html, text
  • src/hg/makeDb/doc/wuhCor1/ncbiGene.txt - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.uniprot.ra - lines changed 11, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/virus/wuhCor1/unipProtease.html - lines changed 31, context: html, text, full: html, text
  • src/utils/apacheLogParse - lines changed 40, context: html, text, full: html, text
  • src/utils/makefile - lines changed 1, context: html, text, full: html, text

5be8001bdbc86aedcbea1d8d03c09c423b7176c6 Tue May 12 09:04:57 2020 -0700

• adapting uniprot track labels
  • src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.ra - lines changed 1, context: html, text, full: html, text

3264a4b84faf347818be4940415a7cdbb8fa31ef Wed May 13 04:22:52 2020 -0700

• adding ncbi mature proteins desc page, refs #25114
  • src/hg/makeDb/trackDb/virus/wuhCor1/ncbiProducts.html - lines changed 42, context: html, text, full: html, text

e975034e529d38834c40b7c5b10519d2c06372f8 Wed May 13 08:11:17 2020 -0700

• making a few fixes to genbankToBigGenePred, refs #25114
  • src/utils/genbankToBigGenePred - lines changed 2, context: html, text, full: html, text

69fdcef9274806b356b65ae8617fd04fc132e502 Wed May 13 13:50:26 2020 -0700

• renaming one uniprot track for wuhCor1
  • src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.uniprot.ra - lines changed 2, context: html, text, full: html, text

f225bd9ef750fb706f2f14bd87e3512b43e23dc1 Wed May 13 13:50:34 2020 -0700

• Revert "adding a protease track to uniprot, refs #25192". I have no idea what happened here, looks like I typed git commit -a instead of git commit -m This reverts commit db7c8abb6d7674bb26f579eabb58bc080ce76fdd.
  • src/hg/hgTrackUi/hgTrackUi.c - lines changed 140, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/mirror.html - lines changed 27, context: html, text, full: html, text
  • src/hg/js/hui.js - lines changed 17, context: html, text, full: html, text
  • src/hg/js/subCfg.js - lines changed 39, context: html, text, full: html, text
  • src/hg/lib/hui.c - lines changed 47, context: html, text, full: html, text
  • src/hg/makeDb/avada/avada.as - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/doc/wuhCor1/kim2020.txt - lines changed 18, context: html, text, full: html, text
  • src/hg/makeDb/doc/wuhCor1/ncbiGene.txt - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.uniprot.ra - lines changed 11, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/virus/wuhCor1/unipProtease.html - lines changed 31, context: html, text, full: html, text
  • src/utils/apacheLogParse - lines changed 40, context: html, text, full: html, text
  • src/utils/makefile - lines changed 1, context: html, text, full: html, text

01c9e489a1e4a544d33cf3e5d21d2dd39d36e7df Wed May 13 13:54:38 2020 -0700

• adding uniprot protease track docs page, refs #25192
  • src/hg/makeDb/trackDb/virus/wuhCor1/unipProtease.html - lines changed 31, context: html, text, full: html, text

c107da5a25ac3f3f58a747ff23d3533f0afedfa1 Wed May 13 15:31:25 2020 -0700

• adding back kim and ncbigene wuhCor1 changes after screwed up commit
  • src/hg/makeDb/avada/avada.as - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/doc/wuhCor1/kim2020.txt - lines changed 18, context: html, text, full: html, text
  • src/hg/makeDb/doc/wuhCor1/ncbiGene.txt - lines changed 9, context: html, text, full: html, text

cd89e9d0ffd48c6ec23b4c39f0065a3cdf6e3e74 Fri May 15 15:45:38 2020 -0700

• adding back uniprot protease trackDb stanzas, refs #25192
  • src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.uniprot.ra - lines changed 11, context: html, text, full: html, text

5bd8982a6e3337c383fce467b5fb6a5b9dfe5726 Mon May 18 06:33:39 2020 -0700

• adding conticelli et al rna editing track, no redmine yet
  • src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.ra - lines changed 10, context: html, text, full: html, text

bdc06272b74428b4b206745d07b0ac4c527444f8 Mon May 18 07:01:01 2020 -0700

• fixing the Orf1ab problem, refs #25114 as per email from Jason
  • src/hg/makeDb/doc/wuhCor1/ncbiGene.txt - lines changed 3, context: html, text, full: html, text
  • src/utils/genbankToBigGenePred - lines changed 4, context: html, text, full: html, text

44c491fb0cbf2ea26b39a42458860dd76f18a8b5 Mon May 18 07:53:58 2020 -0700

• adding stringtie Kim track, mostly for Miten as an example
  • src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.ra - lines changed 7, context: html, text, full: html, text

a0ea77a19c81a4c1d0929d6f97994e1843309adb Mon May 18 08:06:53 2020 -0700

• fixing Orf1ab to ORF1ab, refs #25114
  • src/utils/genbankToBigGenePred - lines changed 1, context: html, text, full: html, text